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Protein

THO complex subunit 4

Gene

ALYREF

Organism
Taeniopygia guttata (Zebra finch) (Poephila guttata)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Export adapter involved in nuclear export of spliced and unspliced mRNA. Binds mRNA which is thought to be transferred to the NXF1-NXT1 heterodimer for export (TAP/NFX1 pathway). Component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export to the cytoplasm. TREX recruitment occurs via an interaction between ALYREF/THOC4 and the cap-binding protein NCBP1. Required for TREX complex assembly and for linking DDX39B to the cap-binding complex (CBC). In conjunction with THOC5 functions in NXF1-NXT1 mediated nuclear export of HSP70 mRNA; both proteins enhance the RNA binding activity of NXF1 and are required for NXF1 localization to the nuclear rim. Involved in the nuclear export of intronless mRNA; proposed to be recruited to intronless mRNA by ATP-bound DDX39B. Involved in transcription elongation and genome stability (By similarity).By similarity
Acts as chaperone and promotes the dimerization of transcription factors containing basic leucine zipper (bZIP) domains and thereby promotes transcriptional activation.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chaperone

Keywords - Biological processi

mRNA processing, mRNA splicing, mRNA transport, Transport

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
THO complex subunit 4
Short name:
Tho4
Alternative name(s):
Aly/REF export factor
Gene namesi
Name:ALYREF
Synonyms:THOC4
OrganismiTaeniopygia guttata (Zebra finch) (Poephila guttata)
Taxonomic identifieri59729 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiArchelosauriaArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaePasseriformesPasseroideaEstrildidaeEstrildinaeTaeniopygia
Proteomesi
  • UP000007754 Componenti: Unplaced

Subcellular locationi

  • Nucleus By similarity
  • Nucleus speckle By similarity
  • Cytoplasm By similarity

  • Note: Travels to the cytoplasm as part of the exon junction complex (EJC) bound to mRNA.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 254254THO complex subunit 4PRO_0000378579Add
BLAST

Proteomic databases

PRIDEiB5FXN8.

Interactioni

Subunit structurei

Homomultimer. Is part of several complexes involved in mRNA processing and export. Component of the transcription/export (TREX) complex at least composed of ALYREF/THOC4, DDX39B, SARNP/CIP29, CHTOP and the THO subcomplex; TREX seems to have a dynamic structure involving ATP-dependent remodeling (By similarity).By similarity

Protein-protein interaction databases

STRINGi59729.ENSTGUP00000003623.

Structurei

3D structure databases

ProteinModelPortaliB5FXN8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini103 – 18078RRMPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi21 – 228208Ala/Arg/Gly-richAdd
BLAST

Sequence similaritiesi

Belongs to the ALYREF family.Curated
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0533. Eukaryota.
ENOG4111JAW. LUCA.
HOGENOMiHOG000239962.
InParanoidiB5FXN8.
KOiK12881.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR025715. FoP_C.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF13865. FoP_duplication. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM01218. FoP_duplication. 1 hit.
SM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B5FXN8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADKMDMSLD DIIKLNRSQR GASRGGRGGR GRGGTARGGG PGRGGVGGGR
60 70 80 90 100
AGGGPVRNRP VMARGGGRNR PAPYSRPKQL PEKWQHDLFD SGFGAGAGVE
110 120 130 140 150
TGGKLLVSNL DFGVSDADIQ ELFAEFGTLK KAAVHYDRSG RSLGTADVHF
160 170 180 190 200
ERKADALKAM KQYNGVPLDG RPMNIQLVTS QIDTQRRPAQ SVNRGGMTRN
210 220 230 240 250
RGVLGGFGGG GNRRGTRGGN RGRGRGAGRT SKQQLSAEEL DAQLDAYNAR

MDTS
Length:254
Mass (Da):26,763
Last modified:October 14, 2008 - v1
Checksum:i306DBF2B75B69033
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti12 – 132II → FL in ACH43805 (PubMed:17018643).Curated
Sequence conflicti100 – 1001E → Y in ACH43806 (PubMed:17018643).Curated
Sequence conflicti236 – 2361S → F in ACH43805 (PubMed:17018643).Curated
Sequence conflicti236 – 2361S → F in ACH43807 (PubMed:17018643).Curated
Sequence conflicti236 – 2361S → F in ACH43808 (PubMed:17018643).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ213511 mRNA. Translation: ACH43799.1.
DQ213512 mRNA. Translation: ACH43800.1.
DQ213513 mRNA. Translation: ACH43801.1.
DQ213514 mRNA. Translation: ACH43802.1.
DQ213516 mRNA. Translation: ACH43804.1.
DQ213517 mRNA. Translation: ACH43805.1.
DQ213518 mRNA. Translation: ACH43806.1.
DQ213519 mRNA. Translation: ACH43807.1.
DQ213520 mRNA. Translation: ACH43808.1.
RefSeqiNP_001232343.1. NM_001245414.1.
UniGeneiTgu.19501.

Genome annotation databases

GeneIDi100190053.
KEGGitgu:100190053.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ213511 mRNA. Translation: ACH43799.1.
DQ213512 mRNA. Translation: ACH43800.1.
DQ213513 mRNA. Translation: ACH43801.1.
DQ213514 mRNA. Translation: ACH43802.1.
DQ213516 mRNA. Translation: ACH43804.1.
DQ213517 mRNA. Translation: ACH43805.1.
DQ213518 mRNA. Translation: ACH43806.1.
DQ213519 mRNA. Translation: ACH43807.1.
DQ213520 mRNA. Translation: ACH43808.1.
RefSeqiNP_001232343.1. NM_001245414.1.
UniGeneiTgu.19501.

3D structure databases

ProteinModelPortaliB5FXN8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi59729.ENSTGUP00000003623.

Proteomic databases

PRIDEiB5FXN8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi100190053.
KEGGitgu:100190053.

Organism-specific databases

CTDi10189.

Phylogenomic databases

eggNOGiKOG0533. Eukaryota.
ENOG4111JAW. LUCA.
HOGENOMiHOG000239962.
InParanoidiB5FXN8.
KOiK12881.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR025715. FoP_C.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF13865. FoP_duplication. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM01218. FoP_duplication. 1 hit.
SM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.

Entry informationi

Entry nameiTHOC4_TAEGU
AccessioniPrimary (citable) accession number: B5FXN8
Secondary accession number(s): B5FXP4, B5FXP5, B5FXP6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 7, 2009
Last sequence update: October 14, 2008
Last modified: May 11, 2016
This is version 36 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.